oyster.v9_M.fa.s40.2.7.7.80.10.50.500.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: scaffold425
Parameters: 2 7 7 80 10 50 500
Length:  1118264

Tables:   1   2   3   

This is table  2  of  3  ( 355 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516192--516235	21	2.3	18	88	11	61	47	18	11	22	1.80
517537--517601	29	2.2	29	100	0	130	30	6	10	52	1.61
517537--517622	29	3.2	27	87	9	81	32	5	10	51	1.60
518094--518515	167	2.6	162	88	3	587	29	21	15	32	1.95
518688--518725	10	3.6	10	92	7	58	47	31	21	0	1.51
520862--521029	60	2.7	62	82	9	193	46	16	21	16	1.84
521118--521164	2	23.5	2	100	0	94	0	51	0	48	1.00
523538--523584	2	23.5	2	100	0	94	48	0	51	0	1.00
523666--523695	2	15.0	2	100	0	60	50	0	50	0	1.00
533373--533764	164	2.4	161	90	2	595	36	14	17	31	1.90
533812--534110	134	2.2	135	85	6	401	27	20	26	26	1.99
536464--536510	12	3.9	12	94	0	85	42	17	40	0	1.49
536978--537011	16	2.1	16	94	0	59	35	5	17	41	1.74
537637--537671	12	2.9	12	86	0	52	0	37	17	45	1.48
540103--540250	21	7.0	21	91	0	215	35	15	6	42	1.72
540763--540910	21	7.1	21	90	1	208	40	16	7	35	1.76
541525--542154	21	30.3	21	81	6	604	43	6	15	35	1.71
541525--542154	63	10.1	63	83	4	688	43	6	15	35	1.71
545539--545580	2	21.0	2	100	0	84	50	0	50	0	1.00
551766--551837	6	10.6	7	73	18	55	0	4	15	80	0.86
551765--551834	21	3.4	20	78	7	70	0	4	15	80	0.87
552535--552605	21	3.4	21	74	0	70	28	28	21	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552572--552611	21	1.9	21	84	0	53	30	27	25	17	1.97
553367--553420	2	27.0	2	88	0	81	44	50	5	0	1.25
557090--557142	21	2.5	21	84	0	70	24	22	30	22	1.99
559682--559845	54	3.0	54	92	0	283	34	14	12	38	1.84
560860--560889	8	3.8	8	95	0	51	33	3	0	63	1.11
561481--561555	2	37.5	2	97	0	141	0	48	0	52	1.00
565163--565207	2	22.5	2	100	0	90	48	0	51	0	1.00
575639--575709	21	3.4	21	86	0	97	35	16	14	33	1.89
575954--576034	21	3.9	21	78	0	81	35	23	11	29	1.89
578458--578530	21	3.5	21	81	3	85	35	19	13	31	1.91
579115--579193	21	3.8	21	88	3	106	27	8	22	40	1.84
579437--579491	21	2.6	21	88	0	83	27	12	21	38	1.90
581005--581030	11	2.4	11	100	0	52	30	11	0	57	1.34
582097--584456	435	5.4	434	81	5	2438	30	16	15	38	1.89
584823--584987	53	3.1	53	91	0	285	44	17	18	19	1.87
585646--586360	177	4.0	182	80	6	755	31	14	16	37	1.89
596557--596610	21	2.6	21	100	0	108	25	9	24	40	1.85
596634--596667	10	3.4	10	87	0	50	20	8	29	41	1.82
596634--596667	15	2.3	15	94	0	59	20	8	29	41	1.82
596815--596848	10	3.4	10	91	0	50	23	8	26	41	1.83
596814--596848	15	2.3	15	90	0	52	22	8	28	40	1.84
596861--596948	21	4.2	20	86	4	113	27	14	22	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596831--596948	42	2.8	41	84	2	128	27	13	23	34	1.93
606097--606122	10	2.6	10	100	0	52	7	0	0	92	0.39
609144--609169	1	26.0	1	100	0	52	100	0	0	0	0.00
610391--610424	2	17.0	2	100	0	68	50	0	50	0	1.00
613385--613412	2	14.0	2	100	0	56	50	0	0	50	1.00
613997--614081	1	85.0	1	72	0	62	85	9	1	3	0.76
614001--614120	46	2.5	47	85	10	145	80	10	2	5	0.97
613996--614120	51	2.5	50	84	7	146	80	11	2	5	0.96
615118--615241	21	5.9	22	68	11	73	33	19	22	24	1.97
616658--616706	16	3.1	16	87	0	80	36	8	22	32	1.84
618316--618355	21	1.9	20	85	5	53	45	0	10	45	1.37
618783--618826	2	22.0	2	100	0	88	50	0	50	0	1.00
619681--619765	21	4.1	20	77	5	89	37	16	20	25	1.93
624207--624279	1	73.0	1	88	0	110	0	1	4	94	0.35
631771--631795	2	12.5	2	100	0	50	52	0	0	48	1.00
644511--644555	13	3.4	13	82	14	56	0	4	11	84	0.76
646300--646355	3	18.7	3	100	0	112	32	33	0	33	1.58
660689--660732	6	7.2	6	87	12	63	0	0	13	86	0.57
660691--660736	7	6.9	7	90	5	69	0	0	13	86	0.56
660689--660732	19	2.4	19	96	3	81	0	0	13	86	0.57
660691--660734	13	3.4	13	90	0	70	0	0	11	88	0.51
665815--665948	50	2.7	50	88	0	178	35	14	15	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665932--665966	18	1.9	18	100	0	70	25	11	17	45	1.81
667471--667565	48	2.0	48	97	0	181	31	11	14	42	1.82
683639--683722	12	6.7	12	78	10	87	2	40	23	33	1.68
683648--683716	4	17.2	4	81	0	75	1	40	24	33	1.64
684054--684103	2	25.0	2	100	0	100	50	0	50	0	1.00
706215--706382	89	1.9	89	95	2	302	25	14	28	31	1.95
706453--706497	23	2.0	23	95	0	81	26	20	20	33	1.97
708436--708469	11	3.1	11	86	0	50	14	47	20	17	1.83
708465--708571	21	5.1	21	84	0	142	32	28	21	17	1.96
710044--710108	21	3.0	21	91	6	103	21	35	23	20	1.96
710100--710190	21	4.3	21	88	0	146	37	26	18	17	1.93
718323--718773	31	14.5	31	64	16	134	38	18	19	23	1.93
718250--718821	124	4.6	124	87	0	793	39	17	19	23	1.92
718327--718819	248	2.0	248	98	0	959	38	17	19	23	1.93
720797--720826	8	3.8	8	90	0	51	33	26	40	0	1.57
720797--720827	16	1.9	16	100	0	62	32	25	41	0	1.56
720979--721053	31	2.4	31	90	0	123	37	17	20	25	1.94
720886--721194	124	2.5	124	89	0	465	40	17	17	24	1.91
738169--738211	9	5.0	9	81	18	56	0	20	32	46	1.51
738176--738214	15	2.6	15	100	0	78	0	17	33	48	1.48
738384--739038	167	4.1	159	86	8	869	33	16	24	26	1.96
738541--739207	167	4.0	166	89	2	885	33	15	23	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742949--743006	3	19.3	3	92	0	98	32	31	0	36	1.58
744517--744679	68	2.4	68	82	2	184	28	15	15	40	1.88
745609--746195	110	5.2	109	77	9	518	35	18	24	21	1.95
745815--745931	61	1.9	60	86	5	164	41	15	23	19	1.89
745609--746198	55	10.5	54	75	10	459	35	18	24	21	1.95
757656--757685	1	30.0	1	100	0	60	100	0	0	0	0.00
770278--770370	21	4.4	21	86	5	134	33	23	21	21	1.97
770859--770935	6	12.5	6	82	14	79	81	16	0	1	0.75
770861--770939	28	3.0	26	81	17	92	79	18	0	1	0.80
770859--770933	37	1.9	40	89	7	120	81	17	0	1	0.76
770859--770938	18	4.4	18	83	11	101	81	17	0	1	0.76
776392--776422	16	1.9	16	100	0	62	25	25	25	22	2.00
781021--781054	14	2.4	14	90	0	59	0	0	17	82	0.67
781021--781052	17	1.9	16	93	6	55	0	0	15	84	0.63
784438--784665	32	7.1	32	91	0	348	28	14	31	25	1.95
795458--795521	2	32.0	2	100	0	128	50	0	50	0	1.00
796397--796457	2	30.5	2	100	0	122	50	0	49	0	1.00
799693--799746	1	54.0	1	84	0	72	0	0	92	5	0.33
799693--799746	19	2.9	19	91	2	83	0	0	92	5	0.33
808720--808869	74	2.0	74	96	0	273	38	17	15	28	1.90
814067--814128	31	2.0	30	90	3	97	41	22	17	16	1.88
816853--816987	19	6.5	20	72	16	98	40	11	9	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
816871--817001	22	6.2	22	75	11	112	41	12	8	37	1.73
816838--816987	41	3.6	42	83	6	171	40	12	10	37	1.77
816871--817001	63	2.1	63	81	9	151	41	12	8	37	1.73
817103--817491	195	2.0	194	100	0	769	42	9	15	32	1.79
829645--829670	12	2.2	12	100	0	52	42	0	34	23	1.54
830144--830280	45	3.0	45	98	0	265	45	17	21	14	1.84
830960--831044	24	3.5	24	82	6	100	42	9	25	22	1.83
830946--831039	48	2.0	48	85	8	129	38	9	26	25	1.87
832357--832407	22	2.3	22	89	0	75	5	13	25	54	1.61
832357--832407	11	4.6	11	75	0	57	5	13	25	54	1.61

Tables:   1   2   3